[Chimera-users] Guidance in finding Interactive Aminoacids with a ligand

Elaine Meng meng at cgl.ucsf.edu
Mon Oct 17 12:14:43 PDT 2016


Dear Shreyas M Iyer,
The address for Chimera questions is chimera-users at cgl.ucsf.edu (not chimera-bugs).

Try going through this tutorial for an example of finding H-bonds and contacts between protein and ligand:
<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/squalene.html>

(Or, if you don’t want to go through the whole tutorial, you can just go through the first two parts, 1: Background and Setup, and 2: Distances, H-Bonds, Contacts.)

Best,
Elaine
----------
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Oct 15, 2016, at 4:07 AM, Shreyas Iyer <shreyas.i.imsc14 at ahduni.edu.in> wrote:
> 
> Respected Sir,
> I am unable to find the interactive aminoacids with the ligand present in a protein.
> Please guide me how to determine interatcive aminoacids.
> 
> Awaiting a positive reply
> 
> Yours Sincerely,
> Shreyas M Iyer




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